In article <t.keen-1609952155420001 at mol9.ioo.bpmf.ac.uk>, t.keen at ucl.ac.uk
(Jeffrey Keen) wrote:
> Does anyone know whether it would be possible to use J-M Claveries XNU
> program to filter microsatellite regions out of DNA sequences, prior to
> database searches.
>
> It presently is only suitable for masking low complexity segments out of
> protein sequences.
>
> Failing that - are there other programs I could use?
>
> Jeffrey Keen
> j.keen at ucl.ac.uk
I have never had any success at filtering these segments correctly. In
addition, the filters don't apply to DNA-DNA searches, so I just wrote a
sequence editor that, when the microsatellite sequence was identified,
output the two sequence ends and I search each individually.
--
Andy Law
( Andy.Law @ bbsrc.ac.uk )
( Big Nose in Edinburgh )